[1] "2025-04-30 00:40:10 MDT" [1] "1510" "151123" "d327" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/151123a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86220 63 [1] 86220 [1] 86220 [1] "testing skipping spike filter" [1] 86220 [1] 86220 [1] "recalculating jog averages" [1] "recalculating jog sds" [1] "recalculating jog slopes" [1] "Parsing MR flags" [1] "Calculating derived concentration values" [1] "2025-04-30 00:40:14 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.885, ave o2scale2 = 0.789" [1] "Removing 0 MR FC 1 jog(s) with WT SD > 1000" [1] "Removing 0 MR FC 2 jog(s) with WT SD > 1000" [1] "Removing 0 MR FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 MR FC 2 jog(s) with SP SD > 1000" [1] "56 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.885, ave o2scale2 = 0.789" [1] "Removing 0 RC FC 1 jog(s) with WT SD > 1000" [1] "Removing 0 RC FC 2 jog(s) with WT SD > 1000" [1] "Removing 0 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 RC FC 2 jog(s) with SP SD > 1000" [1] "56 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 00:40:14 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 00:40:14 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 00:40:31 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 00:40:33 MDT" [1] "reading in recalculated plot titles" [1] "Removed 56 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1380 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 00:40:36 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CB08910 description: HS CO2 = 384.68 O2 = -522.4" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 406.18 O2 = -648.4" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.11 O2 = -572.1" [1] "position 5 cylinder CA07554 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07556 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.946 co2off = 399.65 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.94 minutes" [1] "Shortest Cal: 8.02 minutes" [1] "Longest Cal: 9.1 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 5 [3,] 6 7 [4,] 8 10 [5,] 11 12 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 59 68 0.04124190 0.04750466 0.04507068 2 6.998492 391.7216 3 2 69 78 0.04820026 0.05445992 0.05202576 2 -15.789484 483.5516 5 2 355 364 0.24993197 0.25619106 0.25375705 3 -15.846711 485.6273 6 4 365 374 0.25688666 0.26314633 0.26071228 3 6.931117 374.7482 7 3 375 384 0.26384172 0.27010142 0.26905832 3 -6.676609 471.9001 9 4 651 660 0.45864670 0.46491068 0.46247514 2 6.788883 372.4694 10 2 661 670 0.46560584 0.47186479 0.46943081 2 -16.024508 481.8699 14 2 935 944 0.66732075 0.67358137 0.67114674 3 -16.099625 473.6752 15 4 945 954 0.67427668 0.68059919 0.67815203 3 6.717000 368.0405 16 3 955 964 0.68130020 0.68756250 0.68651932 3 -6.901805 467.1532 20 4 1229 1237 0.87606467 0.88232755 0.87994133 2 6.645719 370.6246 21 2 1238 1246 0.88302315 0.88859042 0.88650314 2 -16.170205 485.1429 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.145272 1.282342 -0.0007094987 0.8133919 0.004110016 12.456498 3 1.145345 1.282427 -0.0022271895 2.8090344 0.005652389 16.141448 5 1.140635 1.278016 -0.0015134448 6.5318413 0.004804543 19.609510 6 1.140375 1.277709 -0.0014792237 5.1014352 0.005552352 15.144168 7 1.140064 1.277341 0.0017799472 -8.2872338 0.006083657 11.224278 9 1.129873 1.267554 -0.0012803282 -1.5852857 0.004125871 7.709432 10 1.129458 1.267097 -0.0038166668 -0.3739815 0.009874799 7.153107 14 1.123962 1.260826 -0.0017291488 2.3372858 0.004490566 16.208430 15 1.123896 1.260735 0.0014324459 1.2257157 0.005664051 4.718298 16 1.123785 1.260583 0.0017555791 -2.3075012 0.005189322 3.101739 20 1.118460 1.254850 0.0016846667 1.6632143 0.006139799 6.891579 21 1.117988 1.254323 0.0007991760 3.1804574 0.003700843 10.020495 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 399.75 co2l1 = 0.943 co2l0 = -0.024" [1] "co2l0 = -206.33 co2l1 = 0.239" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "77 out of 455 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "378 out of 1217 1-min values rejected as stack air" [1] "361 out of 1109 Line 1 1-min values rejected as stack air" [1] "17 out of 108 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"